Hey there to all my readers. Sorry about the late update, I've been busy with my other story, Naruto: Son of the Gods. Check it out. Anyways, we've come upon a massive time skip. Naruto is now 22, and well, you'll just have to find out. The reason for this time skip…well, quite simply I want to get to the Mass Effect timeline. There will be large flashbacks to compensate.

In addition, I would like to thank Guardian of the inheritance for pointing out my error in the first chapter. It has been corrected.

Also, someone pointed out the Protheans were nicer in my story then in the game. My excuse for this is that they don't have a jackass as an emperor.

Lastly, I need a beta.

And on with the show!

Savior

Ch.4

End of days

A twenty two year old blonde man sat on the remains of an old Prothean capitol building on Feros. He had ordered the majority of his fleet into a special facility that would by no means be attacked by the reapers, along with the now retired prothean council and royal family and several civilian groups, located in a system not too far from his homeworld.

He first came here 5 years ago for possible locations for 'Operation survivor'. It was his idea to initiate the operation. First, they would design beacons delegated to various developing species, based upon their predicted expansion through space. Next, they build a series of bunkers on uninhabited planets. Unfortunately, all but one had been discovered, but at least the last remaining Prothean fleet would be saved. During the exploration period to find these planets, Naruto met an ancient plant species known as the thorians.

Evidently there were only a few left, but the majority of them were clustered on this planet. The one Naruto met was evidently a female thorian who called herself thorian. Naruto called her planty. Planty and Naruto became friends the first time they met. Now, years later, he asked her for her help. He was going to enter a state of stasis based on meditation and sealing.

Naruto stood from his overlook of the ruined Prothean city and began walking to his new sealing chamber, thinking about his life before the war began to get this bad.

FLASHBACK

A 12 year old Naruto straightened his new vice-admirals uniform. It was finally graduation day. Over the past five years, Naruto had been trained in everything from politics to fleet strategy to personal command, and everything in-between. He'd also been training with his father and Kura inside his mindscape. Minato told him he was easily at high chunin level, but had a way's to go until he reached jonin or kage level.

Today wasn't only his graduation day though; it was also Arla and Javik's graduation day. Naruto put on his holster for his pistol, an advanced pistol that had the accuracy and power of a sniper rifle, but the ability to go full auto. It wasn't regulation to wear a weapon with just the uniform, but Naruto always thought it was best to be prepared. He put on his new admirals hat, tailored specifically for him, seeing as how prothean hats had a different size and shape. Naruto's Omni-tool started vibrating, telling him that it was time to go to the ceremony.

He made his way quickly through his room and into the ship corridor. He walked to the council room, where he met Arla and Javik, who were in their uniforms as well. They seemed to be discussing something rather heatedly, and Javik was clearly blushing. Both Javik and Arla were taller than Naruto now, by about 2 inches. Of course, it was rather hard for Naruto to get all the nutrients he needed from fish and ramen, which seemed to be the mainstays of a prothean diet…well the fish was, but ramen was Naruto's personal dish.

"Ah get a room you two." Naruto shouted as he approached

They both blushed hardly and turned to see who it was that had said that, only to see Naruto. Their automatic reaction was to salute with a smile, though Javik was still blushing.

"Sigh, at ease." They both released their salute and smiled. "Good to see you sir."

"You guys don't have to call me that you know…"

"Yeah, we know, but you're just too much fun to tease." Arla said

"Yeah, and you two just need to admit you're feelings for each other."

Javik blushed and tried to stammer a reply, but before he could, the doors to the council room opened.

"Well, I think that means it's time to go in. Shall we?" Naruto said smiling.

Both Arla and Javik recovered quickly and followed Naruto into the council chamber. Everyone, including the emperor and empress, was already seated. Naruto stood in the middle, a little in front of Arla and Javik, who were on his left and right.

"Admiral Naruto, Lieutenant Javik, Ensign Arla, and today you officially take your posts. Do you all pledge to defend the Prothean Empire from all threat, both foreign and domestic, and to protect the civilians of the Prothean Empire, and to treat those under your command justly and equally?"

"We do."

"Congratulations, you are now ranking members of the grand navy. Admiral Naruto, you have been assigned command of the fifth fleet, and put in charge of the defense of the endeavor. Your flagship is not the endeavor, but rather the Ilos, which is a battleship class vessel. You are authorized to make any improvements to your fleet that is within budget. You have full charge, and as prince there are no official channels to go through. As for you two, you will be assigned commissions on any designated ship and fleet that put's in a request."

Naruto stepped up and said, "Permission for the ensign and the Lt. to join my crew on the Ilos?"

"Permission granted. Lieutenant Javik and Ensign Arla are hereby assigned to the Ilos. This meeting is adjourned."

The council filed out, leaving the three friends alone.

"Well, let's go see my new ship!"

30 minutes and a shuttle ride later, they arrived on the deck of the Ilos. The ship itself was a wreck. It had been recovered after the battle for the Prothean homeworld. The battle was lost, and about half the fleet was destroyed. The Ilos had lost about half of its guns, as well as a majority of the lower levels. The ship itself still maintained a skeleton crew. The bridge was still intact though, as was the command center.

Many of the soldiers onboard already respected Naruto for his actions in regards to his efforts to relieve those who were hit hardest by the war, but many doubted his ability to command a fleet at his age, much less to take control of a battle.

The rest of the fifth fleet was basically an assembly of weapon equipped civilian ships and a few fighter squadrons, with only a single fully staffed cruiser.

"Great, they gave me a fixer upper. Well, I'll do my best. Ensign, report down to engineering and send me a report of all currently operating systems. Lt. stay with me. We have some work to do."

Arla saluted and took an elevator down to engineering. "What do you have planned, Naruto?" Javik asked.

Naruto smirked, "I'm going to make this fleet the best damn one in the grand navy, and I'll do it in four years."

Four years later, the fifth fleet was regarded as the best equipped and trained force in Prothean space. Naruto had scrapped all the civilian ships and ordered the construction of five carriers, ten cruisers, eighteen destroyers', three battleships, and a new devastator class ship, that had twice the armaments of the endeavor, but was half the size. Naruto decided to name it the Shinobi, after his people's warriors.

Naruto also managed to procure forty additional fighter squadrons and twenty intrepid Mk II ships, including the Kiran and its crew, which he requested to transfer to his fleet. Needless to say, Rikan and Agli were surprised to see him again, but happy to be under his command. He'd managed to do all of this by scrapping all the civilian ships he had in his fleet, and when he ran out of those, he led expeditions to recover derelict ships from some of the older battlefields. He'd gone so far as to personally take down a reaper that was orbiting an old Prothean space station. He did it by himself, in a fighter, with no back up, which earned him the name, 'reaper slayer'.

Every ship under his command was fully staffed, and trained for any situation. He began recruiting from refugees and war vets, and trained them all the way he was trained; to be swift, efficient, and deadly. His ships were equipped with the very best weapons and shields available to buy. Several ships were equipped with stealth drives, and many were equipped with missles capable of penetrating reaper shields.

A now 16 year old Naruto was looking out at space from his bridge. Even though his fleet was widely claimed to be the best, they had yet to be in open conflict.

"Sir, we have an incoming unidentified force on scanners." Arla, who was now serving on the bridge said in a relaxed tone.

Naruto sighed. He still hadn't gotten used to his friends calling him 'sir' or 'admiral'. Javik and Arla had finally started dating last year, much to Naruto's relief. Of course, he was beginning to be pressured by his parents to find a girlfriend, but none of the Prothean women he had met seemed to do it for him. Besides, their physiology wasn't compatible.

"Alright, it's probably nothing, but tell all ships to go to alert level two, ready positions, and contact the endeavor and tell it to prepare for an emergency jump."

"Aye aye."

"Admiral…" Javik said, "all ships report ready. ETA of unidentified force, five minutes and counting."

"Understood, keep the comm. Open and continue scanning."

A few minutes passed before Arla yelled, "Commander, one of the ships has been identified…It's the harbinger!"

"What!? Shit! Contact the endeavor and tell it to prepare for an immediate jump! And give me the comm.!"

Javik pressed a few buttons on the console in front of him. "The comm. Is yours sir."

"All vessels and personnel, this is admiral Naruto. The unidentified contact has been identified as a reaper force under the command of Harbinger. This is a code red emergency. This will also be the first combat experience for many of you. Keep calm and remember your training, and you'll do fine. Our goal today is to buy time for the endeavor to escape and then get the hell out of here. I want all ships, except for the fighters, to get in position. This is a level 1 alert."

"All weapons report ready. The endeavor reports that their time to jump is ten minutes."

"Sir, reaper forces will arrive in three…two…one."

Twenty reapers exited from their jump, and the battle began. By the end of it, only three reapers remained, the endeavor had retreated to an undisclosed location, and the fifth fleet had retreated, losing three destroyers, a cruiser, and an intrepid class. Minimal losses, by all accounts, that earned Naruto yet another nickname, 'the defender of the empire'.

The fifth fleet continued to make a name for itself in battles across imperial space. The empire didn't gain any ground, and was still losing, but more civilians managed to be saved as a result of the fleets' intervention.

After a year of fighting, Naruto was promoted to grand admiral, putting him in charge of all prothean fleets. He called a meeting for the royal family, the council, and the remaining fleet admirals and generals in the Cabiv system, at the edge of Prothean space.

"Ladies and gentlemen of the council, the army, and the grand navy, I have called this meeting to discuss one thing; the future of civilization and the Prothean Empire."

A general laughed, "The future is the Prothean Empire boy that is all that needs to be said!"

Naruto's face took a grim look, "If you believe that, then you obviously haven't gone against the reapers."

He turned to face the entire council, "No, unfortunately, the future does not lay with the empire, but with the undeveloped races. We are losing this war. We know that the reapers want one thing, our extinction. We can deprive them of this, and live to fight another day if we follow my plan."

"And what is this plan, Naruto?" Hakiv asked

"We have a few things that we need to do. The first is the deployment of beacons that contain information about this cycle, made for the species that have yet to advance. Each one should contain information on the uncompleted superweapon that the other cycles devised. These should be deployed at strategic locations and based upon the idea of how far each individual species will expand based on their predicted development of space travel. Next, in order to sustain our species, we will construct bunkers based on cryo-gen technology. These bunkers will sustain our people and allow us to survive. The locations will be determined by me and my fleet. The cryo-freeze will deactivate when an A.I chooses or manually. The third thing that must happen is the dissolution of the empire, and moving to a republican system. We've been moving toward this system for years, and I believe that the next cycle will be more democratic. If we co-operate instead of absorb, then we may have a much better chance at defeating the reapers."

"You talk as if we've already lost the war!" a general shouted.

"Look out on our map and what do you see? We used to extend to the galactic core! Now we're barely hanging on to our colonies on the outer rim. We have lost the war."

"Alright then, all in favor of adopting admiral Naruto's plan?"

All of the admirals, as well as the council raised their hands.

"All opposed?"

All of the generals raised their hands save the re-instated general Xika, who voted for the plan.

"The plan passes, and will be codenamed Operation Survivor. This council is hereby dissolved, and all military personnel will now report directly to the admiral. This meeting is adjourned."

And so after that, Naruto sent agents to all corners of the galaxy. He himself went to Ilos, where he met planty, and to his homeworld, at the insistence of his father and Kura. When he arrived, something odd happened. As soon as he touched down, he was enveloped in a strange energy that pulled him to the ruins of the land of Iron.

When he arrived, there was nothing but the ruins of buildings and ashes, but as he made his way to the center of the area, the energy increased till it ended in a flash, revealing that he was at the center of a giant seal.

"Channel some chakra into it." His father urged.

"Alright, but what will happen?"

"You should be transported to the sealed dimension. I believe that you have something to discuss with your parents and the other kages."

Naruto did as he was told, and suddenly found himself in the middle of a circular room with humans sitting in chairs that surrounded it. Each seat had a different marking, but there were five seats that were situated closest to the center. These seats were marked with the symbols for the leaf, the cloud, the rock, the sand, and the mist.

Naruto wasn't really focused on this though, he was paying more attention to the man in the leaf seat, who had golden blonde hair and blue eyes.

"DAD!" Naruto yelled as he tackled Minato in a man hug.

"Naruto? Not that I'm not glad to see you, but what are you doing here?"

"Ahem!" a red headed woman next to Minato said clearly.

"Is that you mom?"

"Yes, it's me sochi…" she said as she joined the embrace and began crying.

After a few minutes, the council began to get antsy, "I'm sorry, but who are you?" the man in the sand booth asked.

"Ah sorry, my name is Naruto Uzumaki, former prince of the prothean empire, and current grand admiral of the grand navy."

"Ummm…what's that?"

For the next hour, Naruto explained where he had been and what he had done, as well as what the reapers were.

"Well, that explains what activated the seal…it was designed to teleport everyone here if there was an extraterrestrial threat…and Kyuubi helped to design it. You were probably left out because you had my blood."

"Well, that really isn't important right now. Kura has informed me that anyone that was put in the seal is immortal until the seal is released, though any children that anyone has will die when they reach 1000. In addition, the aging process stops at age 20 for any kids moved into the seal. What I would like you to do is keep developing, and prepare to fight the reapers. If my guess is right, you should have around 50,000 years to develop your technology and defenses. Seeing as how I'm the only one who can release this seal, I'll be back then.

Any future colonies you make will exist in this pocket dimension. If at all possible, I'd like you to stay in this quadrant of the galaxy. Our predictions indicate that no one will settle this space in the future, meaning it's all yours. (A/N: What I mean by this is if you draw two bisecting lines in the Galaxy map, dividing it into four pieces, the upper left hand section.)

Although, the area closer to the perius vale (A/N: Perseus veil), will probably belong to the prothean empire. Did you get all of that?"

"Yeah, we've got it. Don't worry, we'll be ready. But how are you planning on surviving for 50,000 years?"

"I don't know yet, but I'll figure it out. I would love to stay here longer, and get to know you and mom, but I can't. I have a species to save. Don't worry though, the next time we see each other, we can get to know each other, and who knows…maybe I'll be married."

Kushina and Minato looked ready to cry, "Be safe, ok kiddo?"

"Alright mom, dad, I'll try. I've always imagined meeting you guy's in person, and now that I have, I want to learn more about you guys. I'll see you guys in 50,000 years!"

Naruto channeled chakra back through the seal and ended up back in the destroyed world. Taking off, Naruto vowed to survive to see his parents again.

After a few months of searching, they found a suitable planet near the perius vale and one on the other side of the system on the planet edon prina III.

Two more years passed, and Naruto married Javik and Arla on board the Ilos. It was a grand ceremony, and Javik and Arla got a month's leave on the resort ship in the fleet. They decided not to have children until after the war ended, and after the rebirth of the Protheans.

A week ago, Naruto put his entire fleet into cryo on the now named planet, Celos, near the perius vale and left for Ilos. He received word that the bunker edon prina had been attacked, and that Javik was the only survivor. Then, Celos's V.I had a malfunction and deactivated, meaning that it had to be opened and activated manually. Naruto would have gone back, but the fighter he was in was a one way trip to Ilos. Javik had been given the co-ordinates for where he would be, he just had to hope that someone would wake him up.

END FLASHBACK

Naruto made his way into his sealing chamber. It was the center of the building, located midway between the building's top and bottom. Naruto had refurbished it using his fighter, so it looked nearly identical to the old Prothean council room. In the center of the room was planty.

"Are you sure you want to do this?"She communicated telepathically.

"I am. It's not like I have much of a choice in the matter though. I just hope that someone wakes Javik up. I'd hate to be sealed here forever."

"Well it won't be that bad. At least you'll have me, Kura, and your father to keep you company."

"Yeah, guess you're right, but either way I'll be here for a while. Well, see you inside!"

He sat down on a seat lined with seals which he activated with a 'Kai', and went into a deep meditative state, waiting to wake up.

50,000 YEARS LATER, LOCATION: EDEN PRIME

"I think he's waking up…"

Javik opens his eyes and flexes his muscles, accidentally sending a biotic attack at the species surrounding him.

"Oh, what hit me…oh sorry about that."

The asari waves to him and says, "We can't understand you!"

He grabs the human next to him. She's female, short red hair, pretty face, or at least by human standards. He absorbs her memories, and she sees some of his.

Oddly enough, there's a human male with golden blonde hair and cerulean blue eyes. His cheeks had three black marks, like whiskers, on each. He had a well defined six pack that was easily seen through the robes he was wearing. In his hands was a hat that was obviously made for him with an odd symbol in the middle. Around his waist was a holster for a pistol.

"Javik, I'm putting you in command of the second bunker. The majority of that bunker will be civilians, the fleet and your wife will be on Celos."

"But admiral…"

"Look, I don't want to do this, but you're the only one I can trust with the bunker. I'll keep your wife safe. You also have the co-ordinates for my personal stasis area, correct?"

"Yes sir." The man nodded and said, "Be safe, Javik"

"You too, Naruto"

As Javik let go of her, her companions, a Turian and the Asari raised their weapons.

"At ease people", the now identified Amanda Shepard said.

"Sorry for attacking you like that…" Javik said in a thick Jamaican accent, "But I needed to stretch and learn your language."

"So that's what you were doing when you touched me?"

"Yeah. I would have warned you…but you wouldn't have understood."

"It's alright. Do you know where you are?"

"Eden Prime by your language, edon prima by mine." Javik turned toward the other two and said, "Asari, Turian. Human. This cycle is ruled by primitives"

"Yeah, the humans rule alongside the Turians, Asari, Salarians, and others. We are all in a council that rules together."

"So it is as Naruto guessed then…the Salarians evolved? When we knew them, they used to eat flies…"

"Their amphibians…" the Asari said

"Well obviously, things have changed since our cycle. You Asari couldn't write at all, and could only count up to their fingers and toes…but regardless, there's someone we need to find."

"Who's that?"

"We need to find Naruto Uzumaki, former prince of the Prothean Empire, and Grand Admiral of the Grand navy."

Annddd that's a wrap!

Another chapter done. Hope you enjoyed. Story line becoming clearer. What effect will the thorian have on the mass effect timeline? And the shinobi still in existence, as well as the protheans?

Keep reading and reviewing!

Ja Ne